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An Information Portal to 105906 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
1YKZ
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 4.6
    Temperature 298.0
    Details sodium choride, sodium acetate buffer, pH 4.6, VAPOR DIFFUSION, HANGING DROP, temperature 298K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 79.13 α = 90
    b = 79.13 β = 90
    c = 37.79 γ = 90
     
    Space Group
    Space Group Name:    P 43 21 2
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 298
     
    Diffraction Detector
    Detector IMAGE PLATE
    Type MAR scanner 345 mm plate
    Collection Date 2004-05-08
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source ROTATING ANODE
    Type RIGAKU
    Wavelength List 1.5418
     
     
  •   Refinement Data Hide
    Reflection Details
    Resolution(High) 1.8
    Resolution(Low) 18.38
    Number Reflections(All) 11605
    Number Reflections(Observed) 11605
    R Merge I(Observed) 0.07
    B(Isotropic) From Wilson Plot 24.23
    Redundancy 1.0
     
    High Resolution Shell Details
    Resolution(High) 1.94
    Resolution(Low) 2.03
    R Merge I(Observed) 0.07
    Redundancy 1.0
    Number Unique Reflections(All) 11606
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.8
    Resolution(Low) 18.38
    Number of Reflections(all) 11519
    Number of Reflections(Observed) 10925
    Number of Reflections(R-Free) 594
    R-Work 0.193
    R-Free 0.225
    R-Free Selection Details Random
     
    Temperature Factor Modeling
    Data Not Available
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.94
    Shell Resolution(Low) 2.03
    Number of Reflections(Observed) 113638
    Number of Reflections(R-Free) 594
    R-Factor(R-Work) 0.193
    R-Factor(R-Free) 0.225
    R-Free Error 0.009
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    c_improper_angle_d 0.71
    c_dihedral_angle_d 22.8
    c_angle_deg 1.3
     
    Coordinate Error
    Luzzati ESD(Observed) 0.19
    Luzzati Sigma A(Observed) 0.04
    Luzzati Resolution Cutoff(Low) 5.0
    Luzzati ESD(R-Free Set) 0.23
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 1001
    Nucleic Acid Atoms 0
    Heterogen Atoms 14
    Solvent Atoms 77
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) DENZO
    Data Reduction (data scaling) SCALEPACK
    Structure Solution CNS 1.1
    Structure Refinement CNS 1.1
     
    Software
    refinement CNS version: 1.1
    model building CNS version: 1.1
    data reduction SCALEPACK
    data collection DENZO